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Comparative phylogeography of wild wheat and their inhabiting transposable elements

Titel Englisch Comparative phylogeography of wild wheat and their inhabiting transposable elements
Gesuchsteller/in Felber François
Nummer 153388
Förderungsinstrument Projektförderung (Abt. I-III)
Forschungseinrichtung Laboratoire de Botanique Évolutive Institut de Biologie Université de Neuchâtel
Hochschule Universität Neuenburg - NE
Hauptdisziplin Botanik
Beginn/Ende 01.07.2014 - 31.01.2018
Bewilligter Betrag 357'335.00
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Keywords (8)

Aegilops; phylogeography; genome dynamics; wheat; phylogeny; hybrid zone; next generation sequencing; transposable elements

Lay Summary (Französisch)

Lead
Les éléments transposables (ETs) peuvent se multiplier et changer de position dans les chromosomes, avec comme conséquences la possibilité de modifications dans la structure et la fonction du génome. Les ETs représentent une fraction importante du matériel génétique qui atteint 80% chez le blé. Cependant, les conséquences respectives des ETs, du génome hôte et de leurs interactions sur l’évolution des espèces sont méconnues. En outre, peu de données existent sur la variation géographique des ETs au sein d’espèces proches. Notre projet concerne des cousines du blé, les égilopes (Aegilops sp). Nous déterminerons dans quelle mesure les génomes et les ETs ont évolués indépendamment. Pour cela, nous allons comparer les évolutions respectives du génome et des ETs dans l’espace et dans le temps. Nous allons aussi comparer des populations du centre de diversification de ces espèces (Est Méditerranée) avec celles qui poussent à la marge de leurs distributions (Ouest Méditerranée).
Lay summary
Direktlink auf Lay Summary Letzte Aktualisierung: 16.06.2014

Verantw. Gesuchsteller/in und weitere Gesuchstellende

Mitarbeitende

Publikationen

Publikation
Benefits from living together? Clades whose species use similar habitats decline less.
Prinzing Andreas, Ozinga Wim A., Brändle Martin, Courty Pierre‐Emmanuel, Hennion Françoise, Labandeira Conrad, Parisod Christian, Pihain Mickael, Bartish Igor V. (2017), Benefits from living together? Clades whose species use similar habitats decline less., in New Phytologist, 213(1), 66-82.
Current plant speciation research: unraveling the processes and mechanisms behind the evolution of reproductive isolation barriers.
Lafon-Placette C Vallejo-Marín M Parisod C Abbott RJ Köhler C (2016), Current plant speciation research: unraveling the processes and mechanisms behind the evolution of reproductive isolation barriers., in New Phytologist , 209, 29-33.
Differential introgression and reorganization of retrotransposons in hybrid zones between wild wheats
Senerchia N Felber F North B Sarr A Guadagnuolo R Parisod C (2016), Differential introgression and reorganization of retrotransposons in hybrid zones between wild wheats, in Molecular Ecology, 25(11), 2518-2528.
Towards unified hypotheses of the impact of polyploidy on ecological niches
Parisod C Broennimann O (2016), Towards unified hypotheses of the impact of polyploidy on ecological niches, in New Phytol , 212, 540-542.
Genome reorganization in F1 hybrids uncovers the role of retrotransposons in reproductive isolation
Senerchia N Felber F Parisod C (2015), Genome reorganization in F1 hybrids uncovers the role of retrotransposons in reproductive isolation, in Proceedings of the Royal Society of London. Series B, 282(1804), 20142874.

Zusammenarbeit

Gruppe / Person Land
Formen der Zusammenarbeit
Weizmann Institute of Science, Israel Israel (Asien)
- vertiefter/weiterführender Austausch von Ansätzen, Methoden oder Resultaten
- Austausch von Mitarbeitern
Centre international d’études supérieures en sciences agronomiques Frankreich (Europa)
- vertiefter/weiterführender Austausch von Ansätzen, Methoden oder Resultaten
Christian Parisod Schweiz (Europa)
- vertiefter/weiterführender Austausch von Ansätzen, Methoden oder Resultaten
- Publikation
- Forschungsinfrastrukturen
- Austausch von Mitarbeitern
Département d'écologie et évolution Schweiz (Europa)
- vertiefter/weiterführender Austausch von Ansätzen, Methoden oder Resultaten
- Publikation
- Forschungsinfrastrukturen
- Austausch von Mitarbeitern
Department of Biological and Environmental Sciences, Univ. Gothenburg Schweden (Europa)
- vertiefter/weiterführender Austausch von Ansätzen, Methoden oder Resultaten
- Forschungsinfrastrukturen
- Austausch von Mitarbeitern

Wissenschaftliche Veranstaltungen

Aktiver Beitrag

Titel Art des Beitrags Titel des Artikels oder Beitrages Datum Ort Beteiligte Personen
Institute of Botany Einzelvortrag Evolution of duplicated genomes under environmental constraints 19.03.2018 Charles University of Prague, Tschechische Republik Parisod Christian;
Institute of Ecology and Evolution Einzelvortrag Evolution of duplicated genomes under environmental constraints 07.03.2018 University of Bern, Schweiz Parisod Christian;
Plant ecology seminar, University of Bern Vortrag im Rahmen einer Tagung Evolution of genomes and ecological niches in polyploid wild wheats 08.11.2017 Berne, Schweiz Huynh Stella;
Institute of Plant Sciences Einzelvortrag Evolution of duplicated genomes under environmental challenges 18.09.2017 University of Bern, Schweiz Parisod Christian;
Strasburger Workshop of the German Society of Plant Sciences ‘Two genomes in one cell – communication and conflict’ Vortrag im Rahmen einer Tagung Conflicting interactions among transposable elements and the rise of reproductive isolation 30.08.2017 Bremen, Deutschland Parisod Christian;
International Botanical Congress 2017 Poster Polyploids are not the genetic and ecological addivitivity of their progenitors 23.07.2017 Shenzhen , China Huynh Stella;
International Botanical Congress 2017, Symposium ‘Plant speciation in the 21st century’ Vortrag im Rahmen einer Tagung The role of retrotransposons in reproductive isolation among wild wheats 22.07.2017 Shenzhen, China Parisod Christian;
International Botanical Congress 2017, Symposium ‘Plant genome size diversity and evolution: from genomics to ecology’ Vortrag im Rahmen einer Tagung Retrotransposons and whole genome duplications shape genome (size) variation 22.07.2017 Shenzhen, China Parisod Christian;
Phylogenomics and phylogeography workshop Vortrag im Rahmen einer Tagung Multiple origins and population structure of polyploid wild wheat species 15.05.2017 Gothenburg, Schweden Huynh Stella;
Departemental seminar, Department of Systematic and Evolutionary Botany, University of Zürich Einzelvortrag Evolution of duplicated genomes under environmental challenges 27.02.2017 Zurich, Schweiz Parisod Christian;
Department of Systematic and Evolutionary Botany Einzelvortrag Evolution of duplicated genomes under environmental challenges 13.02.2017 University of Zürich, Schweiz Parisod Christian;
Biology17 Poster Are polyploids ecologically and genetically different from their diploid progenitors: The case of Aegilops spp. 02.02.2017 Berne, Schweiz Huynh Stella;
GDC Symposium 2016 Vortrag im Rahmen einer Tagung Disentangling reticulate evolution in diploid-polyploid systems using high-throughput amplicon sequencing: The case of Aegilops species 06.09.2016 Zurich, Schweiz Huynh Stella;
Workshop of the Molecular Bioinformatics Research Group ‘ALPHY16’ Vortrag im Rahmen einer Tagung Hybridization, genome reorganization and species diversification 17.03.2016 Lille, Frankreich Parisod Christian;
Biology16 Poster Multiplex amplicon sequencing for genotyping and phylogenetic inference in polyploid wild wheats 11.02.2016 Lausanne, Schweiz Huynh Stella;
Séminaire de biodiversité et Systématique, Conservatoire et Jardin botaniques Einzelvortrag Les blés sauvages et leurs interactions avec le blé cultivé 11.02.2016 Genève, Schweiz Felber François;
Departemental seminar, Department of Animal and Plant Sciences, University of Sheffield Einzelvortrag Hybridization, genome reorganization and species diversification 25.09.2015 Sheffield, Angleterre, Staatenlose Parisod Christian;
Symposium ‘Ecology and Evolution of the Living World Vortrag im Rahmen einer Tagung Retrotransposons support reproductive isolation 04.09.2015 Gif-sur-Yvette, Frankreich Parisod Christian;
Congress of the European Society for Evolutionary Biology Poster Differential introgression of retrotransposons in a natural hybrid zone 10.08.2015 Lausanne, Schweiz Felber François; Parisod Christian;
Congress of the European Society for Evolutionary Biology Poster Multiplex amplicon sequencing for genotyping and phylogenetic inference in 10.08.2015 Lausanne, Schweiz Felber François; Parisod Christian; Huynh Stella;
Departmental seminar, Department of Biology, University of Copenhagen Einzelvortrag Genome reorganization and evolutionary diversification 25.06.2015 Copenhagen, Dänemark Parisod Christian;
Annual Ph.D. Students Meeting 2015 Poster Comparative phylogeography of wild wheats and their inhabiting transposable elements (TEs) 26.05.2015 Neuchâtel, Schweiz Huynh Stella;
Workshop of the European Molecular Biology Organization ‘Mechanisms of plant speciation’ Vortrag im Rahmen einer Tagung The role of retrotransposons in reproductive isolation 12.05.2015 Norrtälje, Schweden Parisod Christian;
Departmental seminar, Department of Plant Biology, University of Zürich Einzelvortrag Proximate and ultimate causes of genome reorganization in polyploids 08.05.2015 Zürich, Schweiz Parisod Christian;
SWISSPLANT 2015 Vortrag im Rahmen einer Tagung The role of retrotransposons in reproductive isolation 29.01.2015 Leukerbad, Schweiz Parisod Christian;


Selber organisiert

Titel Datum Ort
Phylogenomics: pitfalls and benefits 25.03.2015 Neuchâtel, Schweiz

Veranstaltungen zum Wissenstransfer

Aktiver Beitrag

Titel Art des Beitrags Titel des Artikels oder Beitrages Datum Ort Beteiligte Personen
Symposium of the Société vaudoise des Sciences Naturelles Vortrag 17.11.2015 Lausanne, Schweiz


Kommunikation mit der Öffentlichkeit

Kommunikation Titel Medien Ort Jahr
Referate/Veranstaltungen/Ausstellungen Graines pour le futur, conservation et recherche à l’Institut Vavilov et en Suisse Westschweiz 2017
Print (Buch, Brochuren, Infoblätter) Graines pour le futur, conservation et recherche à l'Institut Vavilov et en Suisse Westschweiz 2017
Medienarbeit: Radio, Fernsehen ADN poubelle et origine des espèces Radio Television Suisse, CQFD program Westschweiz 2015

Verbundene Projekte

Nummer Titel Start Förderungsinstrument
164820 The diversity of crops: from conservation of ancient varieties to advances of science 01.06.2016 Agora

Abstract

Background: Transposable Elements (TEs) represent a major fraction of genomes, but to what extent the TE content influences and is influenced by the evolutionary trajectories of host genomes remains poorly known. Environmental stresses, hybridization and polyploidy have been shown to induce TE proliferation, but data on variation of TE fractions across species ranges is limited. Recent findings show that wheat and wild Aegilops relatives underwent drastic genome reorganization in association with allopolyploidy and TE dynamics, suggesting that TEs are central to their diversification. General objectives: Empirical population genetics of TE dynamics addressing the processes acting on closely related host taxa is necessary to disentangle the factors driving the distribution of TEs. The present proposal focuses on a set of 4 diploid Aegilops and 4 derived allopolyploid species (i.e. MCDU cluster). Based on our expertise of these species and their active TEs, we aim to determine to what extent genomes and TEs evolved independently. Inference and dating of the divergence between diploids and of the origin(s) of polyploids will provide a robust framework to assess the comparative phylogeography of their genome and TE fractions. Of particular interest will be the comparison of central vs. marginal spontaneous hybrid zones to test for the factors affecting TE genome content.Experimental design and approaches: The proposal aims to address three complementary questions:(1) What are the respective patterns of speciation in diploid and derivative polyploid species of the MCDU cluster of Aegilops? A dated phylogeny of species of the MCDU cluster will be inferred based on a multilocus survey and will give a clear understanding on its evolution.(2) Are the spatiotemporal trajectories of genomes and TEs independent? A large phylogeographic survey of the eight species over the Mediterranean area will compare genetic data based on SSAP (i.e tracking TE insertions) and AFLP (i.e. random sequences). It will highlight areas of particular TE dynamics and TE evolutionary trajectories across the species ranges. (3) Are evolutionary forces acting on the accumulation of TE insertions different in central vs. marginal populations? Fine-scale investigation of corresponding hybrid zones in the central vs. marginal part of their range will test the dynamics of TEs and the processes shaping the distribution of TE insertions on the long term. Experimental F1 hybrids between Aegilops polyploids (i.e. Ae. geniculata and Ae. triuncialis) will quantify the short-term dynamics of TEs in response to hybridization.Significance of the project: Comparing evolutionary trajectories in space and time of related species and their inhabiting TEs has so far not been investigated. Aegilops spp. offer a unique opportunity to examine factors underlying the distribution of TEs within and among species. In particular, this project tests the respective influences of genetic differentiation (central vs. marginal populations), hybridization (experimental and natural pure vs. hybrid populations) and polyploidy (diploids vs. allopolyploid) on TE genome contents. Addressing such questions at complementary spatial scales will offer original insights on the evolutionary forces controlling TE dynamics in natural populations. Evolutionary processes shaping TE variation share analogies with traditional host-parasite systems, but it remains unclear to what extent such co-evolutionary relationships adequately describe genome-TE systems. Data gathered here on complex Aegilops genomes will be crucial to evaluate theoretical advances required to understand the evolution of genome architectures. It will thus be of interest to evolutionary and molecular biologists as well as ecologists.
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